Variant report

Variant	rs2632540
Chromosome Location	chr9:17116517-17116518
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:17116046..17116795-chr9:17462771..17463533,2	MCF-7	breast:
2	chr9:17116233..17116835-chr9:17462927..17463473,2	MCF-7	breast:
3	chr9:17116081..17117141-chr9:17402172..17402905,3	MCF-7	breast:

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs1016100	0.95[ASN][1000 genomes]
rs10810718	1.00[CEU][hapmap]
rs10810719	1.00[CEU][hapmap]
rs10810724	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10810736	0.85[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs10962836	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10962843	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10962844	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10962852	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10962853	0.84[ASN][1000 genomes]
rs10962855	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10962860	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10962873	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10962875	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10962885	0.84[ASN][1000 genomes]
rs10962892	0.84[ASN][1000 genomes]
rs10962896	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs10962903	1.00[JPT][hapmap]
rs12004921	0.84[ASN][1000 genomes]
rs1725362	0.89[YRI][hapmap]
rs17754109	0.84[ASN][1000 genomes]
rs17754240	0.85[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs17827163	0.85[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs196534	0.96[YRI][hapmap]
rs2210540	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs263562	0.90[EUR][1000 genomes]
rs263565	0.92[EUR][1000 genomes]
rs263566	0.92[EUR][1000 genomes]
rs263607	0.96[YRI][hapmap]
rs263617	1.00[YRI][hapmap]
rs263618	1.00[YRI][hapmap]
rs263619	1.00[CEU][hapmap];0.83[YRI][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs263620	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs263622	0.96[YRI][hapmap]
rs2774616	0.91[AFR][1000 genomes]
rs2815199	0.81[AFR][1000 genomes]
rs366854	0.89[YRI][hapmap]
rs367508	0.89[YRI][hapmap]
rs367637	0.88[YRI][hapmap]
rs368656	0.89[YRI][hapmap]
rs370972	0.88[YRI][hapmap]
rs371497	0.81[AFR][1000 genomes]
rs377940	0.89[YRI][hapmap]
rs388148	0.89[YRI][hapmap]
rs388948	0.89[YRI][hapmap]
rs393468	0.89[YRI][hapmap]
rs397917	0.89[YRI][hapmap]
rs401111	0.89[YRI][hapmap]
rs402771	0.89[YRI][hapmap]
rs416529	0.88[YRI][hapmap]
rs428996	0.89[YRI][hapmap]
rs429401	0.89[YRI][hapmap]
rs431705	0.88[YRI][hapmap]
rs441045	0.88[YRI][hapmap]
rs441208	0.87[YRI][hapmap]
rs452070	0.89[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024799	chr9:16631890-17431827	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	esv2764141	chr9:16903446-17351711	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv892657	chr9:17008137-17223492	Weak transcription Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv892658	chr9:17041557-17532840	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:17116200-17116800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr9:17116200-17117000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr9:17116200-17117200	Enhancers	Duodenum Smooth Muscle	Duodenum
4	chr9:17116400-17117000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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